Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 138 of 198
Found at i:43943422 original size:10 final size:10
Alignment explanation
Indices: 43943399--43943441 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
43943389 ATATTTTAAG
43943399 AAAATTAT-A
1 AAAATTATAA
43943408 AAAATTATAA
1 AAAATTATAA
*
43943418 AAAATTACAA
1 AAAATTATAA
43943428 AAAATTATTAA
1 AAAATTA-TAA
43943439 AAA
1 AAA
43943442 GTTAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.27
10 17 0.57
11 5 0.17
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTATAA
Found at i:43952324 original size:74 final size:75
Alignment explanation
Indices: 43952172--43952373 Score: 185
Period size: 74 Copynumber: 2.7 Consensus size: 75
43952162 GGATCTATAA
* * ** * *
43952172 TATGCAAATATACATGTATATGTTCTTGTATTGAATTTAGGTATGCCATTTATACAAGTTTATAT
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAG
43952237 GAGGTTAGAT
66 GAGGTTAGAT
* * * *
43952247 TATGCAAATATGCATGTATATGTTC-TGTAATGAGTTTAAGTATGAAATTTATATATGTATA-AG
1 TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATA-
*
43952310 GGAGGTTCGAT
65 GGAGGTTAGAT
* * * * * *
43952321 TATGTATGTATATTCATGTAAAAGTTCTTG-AATGGAATTGAAGATATGAAATT
1 TATGCA--AATATACATGTATATGTTCTTGTAAT-GAATTTAAG-TATGAAATT
43952374 ATTAGCTTGG
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
73 1 0.01
74 42 0.41
75 24 0.23
76 18 0.17
77 9 0.09
78 9 0.09
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (75 bp):
TATGCAAATATACATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAG
GAGGTTAGAT
Found at i:43952676 original size:41 final size:41
Alignment explanation
Indices: 43952631--43952708 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
43952621 CAGGTTTATT
*
43952631 GCCGGTGAAACGTGTCAGACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATGTCAGACTTTAAGTCTAGCAGGCTTGAC
* *
43952672 GCCGGTGAAACATTTCAGACTTTATGTCTAGCAGGCT
1 GCCGGTGAAACATGTCAGACTTTAAGTCTAGCAGGCT
43952709 AAGTGCCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
GCCGGTGAAACATGTCAGACTTTAAGTCTAGCAGGCTTGAC
Found at i:43954806 original size:9 final size:9
Alignment explanation
Indices: 43954792--43954835 Score: 79
Period size: 9 Copynumber: 4.9 Consensus size: 9
43954782 CAAAAATTCT
*
43954792 TTGAAGAAA
1 TTGAAGAAC
43954801 TTGAAGAAC
1 TTGAAGAAC
43954810 TTGAAGAAC
1 TTGAAGAAC
43954819 TTGAAGAAC
1 TTGAAGAAC
43954828 TTGAAGAA
1 TTGAAGAA
43954836 ATTTTGATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.07, G:0.23, T:0.23
Consensus pattern (9 bp):
TTGAAGAAC
Found at i:43956660 original size:19 final size:19
Alignment explanation
Indices: 43956590--43956701 Score: 62
Period size: 19 Copynumber: 5.8 Consensus size: 19
43956580 AATAGACCTT
* * * *
43956590 GTGTGCTAGTAAGAACTTA
1 GTGTGCCAGTATGCACTTC
*
43956609 GTGTGCCAGTATGCGCTTC
1 GTGTGCCAGTATGCACTTC
* * *
43956628 GTGCGTCAGGATGCACTTC
1 GTGTGCCAGTATGCACTTC
* ** *
43956647 GTGTGCCAATATGCGTTTT
1 GTGTGCCAGTATGCACTTC
** *
43956666 GTGCACCAGTGATGCGCTTC
1 GTGTGCCAGT-ATGCACTTC
* *
43956686 GAGCGCCAGTATGCAC
1 GTGTGCCAGTATGCAC
43956702 ATTACGTGCT
Statistics
Matches: 68, Mismatches: 24, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
19 53 0.78
20 15 0.22
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (19 bp):
GTGTGCCAGTATGCACTTC
Found at i:43956699 original size:39 final size:38
Alignment explanation
Indices: 43956613--43956699 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 38
43956603 AACTTAGTGT
** * *
43956613 GCCAGTATGCGCTTCGTGCGTCAGGATGCACTTCGTGT
1 GCCAGTATGCGCTTCGTGCACCAGGATGCACTTCGAGC
* * * *
43956651 GCCAATATGCGTTTTGTGCACCAGTGATGCGCTTCGAGC
1 GCCAGTATGCGCTTCGTGCACCAG-GATGCACTTCGAGC
43956690 GCCAGTATGC
1 GCCAGTATGC
43956700 ACATTACGTG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 19 0.49
39 20 0.51
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (38 bp):
GCCAGTATGCGCTTCGTGCACCAGGATGCACTTCGAGC
Found at i:43960688 original size:44 final size:44
Alignment explanation
Indices: 43960630--43960718 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
43960620 TCCAGATCCC
43960630 TTGACATCCCGACATTAAGGATTGAAGACACTAATTCTCTTATT
1 TTGACATCCCGACATTAAGGATTGAAGACACTAATTCTCTTATT
*
43960674 TTGACATCCTGACATTAAGGATTGAAGACACTAATTCTCTTATT
1 TTGACATCCCGACATTAAGGATTGAAGACACTAATTCTCTTATT
43960718 T
1 T
43960719 GTTCTGGAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (44 bp):
TTGACATCCCGACATTAAGGATTGAAGACACTAATTCTCTTATT
Found at i:43962946 original size:132 final size:132
Alignment explanation
Indices: 43962709--43962973 Score: 521
Period size: 132 Copynumber: 2.0 Consensus size: 132
43962699 TCCTAAACTC
43962709 AATCCTCCCTTAGATCATACTATCGAAACATCAATACCAAGCTAGAAGCCACATCTTCTTCAAAC
1 AATCCTCCCTTAGATCATACTATCGAAACATCAATACCAAGCTAGAAGCCACATCTTCTTCAAAC
43962774 CCTTTCCATTCGTACACCACTTAATTTTGTCTCCATGAAGAAGACCATTTGGAGACTATATAACT
66 CCTTTCCATTCGTACACCACTTAATTTTGTCTCCATGAAGAAGACCATTTGGAGACTATATAACT
43962839 TT
131 TT
43962841 AATCCTCCCTTAGATCATACTATCGAAACATCAATACCAAGCTAGAAGCCACATCTTCTTCAAAC
1 AATCCTCCCTTAGATCATACTATCGAAACATCAATACCAAGCTAGAAGCCACATCTTCTTCAAAC
*
43962906 CCTTTCCATTTGTACACCACTTAATTTTGTCTCCATGAAGAAGACCATTTGGAGACTATATAACT
66 CCTTTCCATTCGTACACCACTTAATTTTGTCTCCATGAAGAAGACCATTTGGAGACTATATAACT
43962971 TT
131 TT
43962973 A
1 A
43962974 GCATATGCTG
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.31
Consensus pattern (132 bp):
AATCCTCCCTTAGATCATACTATCGAAACATCAATACCAAGCTAGAAGCCACATCTTCTTCAAAC
CCTTTCCATTCGTACACCACTTAATTTTGTCTCCATGAAGAAGACCATTTGGAGACTATATAACT
TT
Found at i:43964424 original size:9 final size:9
Alignment explanation
Indices: 43964410--43964440 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
43964400 AATCAAGTAA
43964410 AATTAAATT
1 AATTAAATT
43964419 AATTAAATT
1 AATTAAATT
43964428 AATTAAAATT
1 AATT-AAATT
43964438 AAT
1 AAT
43964441 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:43964859 original size:17 final size:17
Alignment explanation
Indices: 43964837--43964870 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43964827 TTTTAATAGG
*
43964837 TTAATATTTAATTTAAT
1 TTAATACTTAATTTAAT
*
43964854 TTAATACTTATTTTAAT
1 TTAATACTTAATTTAAT
43964871 AGTATTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATACTTAATTTAAT
Found at i:43966179 original size:5 final size:5
Alignment explanation
Indices: 43966169--43966196 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43966159 ATGTTTTAAA
43966169 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
43966197 CATGTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:43966413 original size:6 final size:6
Alignment explanation
Indices: 43966402--43966426 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43966392 AGAAAGAAAG
43966402 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
43966427 GGAAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:43966734 original size:18 final size:18
Alignment explanation
Indices: 43966711--43966751 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43966701 AATAAATTTG
*
43966711 GAATTGAATTATGATA-AT
1 GAATTGAATT-TGAAATAT
43966729 GAATTGAATTTGAAATAT
1 GAATTGAATTTGAAATAT
43966747 GAATT
1 GAATT
43966752 TGAAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
GAATTGAATTTGAAATAT
Found at i:43966997 original size:21 final size:21
Alignment explanation
Indices: 43966948--43967030 Score: 87
Period size: 21 Copynumber: 3.9 Consensus size: 21
43966938 GGCTTTGCCG
*
43966948 ATCAGACACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
43966969 ACATCAGGAACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
* **
43966992 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
43967013 TTCAGGCAC-TTATGTGTC
1 ATCAGGCACTTTATGTGTC
43967031 ATATACTGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 7 0.14
21 25 0.49
23 19 0.37
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:43971901 original size:18 final size:18
Alignment explanation
Indices: 43971878--43971913 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43971868 TCATTCTTTT
43971878 ACTCACAATGCTTTTAAC
1 ACTCACAATGCTTTTAAC
*
43971896 ACTCACCATGCTTTTAAC
1 ACTCACAATGCTTTTAAC
43971914 TCACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.33
Consensus pattern (18 bp):
ACTCACAATGCTTTTAAC
Found at i:43971917 original size:16 final size:16
Alignment explanation
Indices: 43971873--43971919 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
43971863 ATTTTTCATT
43971873 CTTTT-ACTCACAATG
1 CTTTTAACTCACAATG
*
43971888 CTTTTAACACTCACCATG
1 CTTTT-A-ACTCACAATG
43971906 CTTTTAACTCACAA
1 CTTTTAACTCACAA
43971920 AATTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 7 0.26
17 1 0.04
18 14 0.52
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (16 bp):
CTTTTAACTCACAATG
Found at i:43975390 original size:30 final size:30
Alignment explanation
Indices: 43975354--43975429 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
43975344 TTTCCCAACA
* * *
43975354 AGCTTGTGTGAGGAACCTTGATATAATGTC
1 AGCTTGTGTGAGCAACCCTAATATAATGTC
43975384 AGCTTGTGTGAGCAACCCTAATATAATGTC
1 AGCTTGTGTGAGCAACCCTAATATAATGTC
* *
43975414 AGCTTATTTGAGCAAC
1 AGCTTGTGTGAGCAAC
43975430 TTAATCATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (30 bp):
AGCTTGTGTGAGCAACCCTAATATAATGTC
Found at i:43977747 original size:91 final size:91
Alignment explanation
Indices: 43977583--43977907 Score: 373
Period size: 91 Copynumber: 3.6 Consensus size: 91
43977573 GGGTAACCAT
* * * * * *
43977583 CCGATAACACGCCAGATTCCTCATAAGGGCTTACCAATCGATAACACGCCAAATGCACATGGTGC
1 CCGATAACACGCCAGTTTACTCATAAGAGCTTTCCAATCGATAACACACCAGATGCACATGGTGC
* *
43977648 AAATCTCGTAGGCCAAGTATTCTCCC
66 AAAGCTCGTAGGCTAAGTATTCTCCC
* ** *
43977674 CCGATAACACGCTAG-TTATCTCATAAGAGCTTTCCAATATATAACACACCAGATGCACATAGTG
1 CCGATAACACGCCAGTTTA-CTCATAAGAGCTTTCCAATCGATAACACACCAGATGCACATGGTG
* * *
43977738 AAAAGCTCGTAGGCTAAGTATTCTTCT
65 CAAAGCTCGTAGGCTAAGTATTCTCCC
* * * * * *
43977765 TCGATAACATGTCAGTTTACTTATAACAGCTTTCCAACCGATAACACACCAGATGCACATGGTGC
1 CCGATAACACGCCAGTTTACTCATAAGAGCTTTCCAATCGATAACACACCAGATGCACATGGTGC
*
43977830 AAAGCCCGTAGGCTAAGTATTCTCCC
66 AAAGCTCGTAGGCTAAGTATTCTCCC
* * * * * * *
43977856 CTGATAACATGCCAATTTGCTCATAAGAGCTTTCCAACCAACAACACACCAG
1 CCGATAACACGCCAGTTTACTCATAAGAGCTTTCCAATCGATAACACACCAG
43977908 TTTGAAGAGA
Statistics
Matches: 195, Mismatches: 37, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
90 2 0.01
91 190 0.97
92 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (91 bp):
CCGATAACACGCCAGTTTACTCATAAGAGCTTTCCAATCGATAACACACCAGATGCACATGGTGC
AAAGCTCGTAGGCTAAGTATTCTCCC
Found at i:43979387 original size:50 final size:50
Alignment explanation
Indices: 43979275--43979571 Score: 256
Period size: 50 Copynumber: 5.8 Consensus size: 50
43979265 ATTTGGGTAA
* **
43979275 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCGTCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT-G-G-CACCGAG---ATG
* *
43979331 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
43979381 AGAGGTCCCATGGAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** * *
43979431 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * * *
43979481 AGAACTCCCGTGTAAGACCATATTTGGGATATGACATTGGTA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
43979530 AAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
43979572 TGTTATTATC
Statistics
Matches: 200, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.00
49 36 0.18
50 121 0.61
53 5 0.03
54 1 0.00
55 1 0.00
56 35 0.17
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:43986484 original size:61 final size:61
Alignment explanation
Indices: 43986385--43986510 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
43986375 ATAAATAACT
* * * *
43986385 TTTA-GTTTTCAGTATGAAAGGTATATTGAAGTTGAGATCAAGATCATTTTCTTGTTAGTG
1 TTTATGTTTTCAGTATGAAAGATATATTGAAGTTAAGATCAAGACCATTTTCTTATTAGTG
*
43986445 TTTATGTTTTGAGTATGAAAGATATATT-AGAGTTAAGATCAAGACCATTTTCTTATTAGTG
1 TTTATGTTTTCAGTATGAAAGATATATTGA-AGTTAAGATCAAGACCATTTTCTTATTAGTG
43986506 TTTAT
1 TTTAT
43986511 TGTGTTCTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 5 0.08
61 54 0.92
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.44
Consensus pattern (61 bp):
TTTATGTTTTCAGTATGAAAGATATATTGAAGTTAAGATCAAGACCATTTTCTTATTAGTG
Found at i:43989450 original size:23 final size:23
Alignment explanation
Indices: 43989405--43989463 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
43989395 TTTAATATTC
**
43989405 ACGAACATGTTCATTTAACTTAA
1 ACGAACATGTTCATGGAACTTAA
*
43989428 TCGAACATGTTCATGG-ACATTAA
1 ACGAACATGTTCATGGAAC-TTAA
*
43989451 ACGAACATTTTCA
1 ACGAACATGTTCA
43989464 CAAACAATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (23 bp):
ACGAACATGTTCATGGAACTTAA
Found at i:43990607 original size:2 final size:2
Alignment explanation
Indices: 43990600--43990633 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
43990590 AATAAAAATA
*
43990600 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43990634 TAAAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43996206 original size:28 final size:28
Alignment explanation
Indices: 43996149--43996205 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
43996139 CTACACTTAG
* *
43996149 TACATTTGGAATTTAGTCTTCCAACTTT
1 TACATTTAGAATTTAATCTTCCAACTTT
43996177 TACATTTAAGAATTTAATC-TCTCAACTTT
1 TACATTT-AGAATTTAATCTTC-CAACTTT
43996206 ATGGATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (28 bp):
TACATTTAGAATTTAATCTTCCAACTTT
Found at i:43996332 original size:55 final size:55
Alignment explanation
Indices: 43996266--43996375 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
43996256 ATTGAAAAGC
43996266 TAACAATATTAACTATATGATTTAATTAATAAAAATATAAAGACCTTAAAAATTA
1 TAACAATATTAACTATATGATTTAATTAATAAAAATATAAAGACCTTAAAAATTA
43996321 TAACAATATTAACTATATGATTTAATTAATAAAAATATAAAGACCTTAAAAATTA
1 TAACAATATTAACTATATGATTTAATTAATAAAAATATAAAGACCTTAAAAATTA
43996376 AAGTATAAGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (55 bp):
TAACAATATTAACTATATGATTTAATTAATAAAAATATAAAGACCTTAAAAATTA
Found at i:43996773 original size:22 final size:22
Alignment explanation
Indices: 43996748--43996790 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43996738 TCTTCCTATT
43996748 TTGCTACCATTTTATTATTATG
1 TTGCTACCATTTTATTATTATG
* *
43996770 TTGCTACTATTTTATTGTTAT
1 TTGCTACCATTTTATTATTAT
43996791 TGTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (22 bp):
TTGCTACCATTTTATTATTATG
Found at i:43998006 original size:31 final size:30
Alignment explanation
Indices: 43997941--43998010 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
43997931 ATAAATAATT
* *
43997941 ATTAATAATTTTATTTAAACATAAATTTGAAA
1 ATTAA-AATTTAATGTAAACATAAATTT-AAA
43997973 ATTAAAATTTAATGTAAACATTAAATCTTAAA
1 ATTAAAATTTAATGTAAACA-TAAAT-TTAAA
*
43998005 TTTAAA
1 ATTAAA
43998011 TCACGAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 13 0.39
32 18 0.55
33 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTAAAATTTAATGTAAACATAAATTTAAA
Found at i:43998099 original size:10 final size:10
Alignment explanation
Indices: 43998084--43998126 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
43998074 ATTTTCATCA
43998084 ATATTTAATT
1 ATATTTAATT
*
43998094 ATATTTAAAT
1 ATATTTAATT
* *
43998104 AAAATTAATT
1 ATATTTAATT
*
43998114 ATATTTATTT
1 ATATTTAATT
43998124 ATA
1 ATA
43998127 ACTCTCCCCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATATTTAATT
Found at i:43999363 original size:29 final size:29
Alignment explanation
Indices: 43999296--43999383 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
43999286 TGCTAAGTAT
* *
43999296 TGTTCTGGAAGAAATAAATTTGACAAT-ATG
1 TGTTCT-GAAAAAATAAATTTGAC-GTGATG
* * *
43999326 GGATATGAAAAAATAAATTTGACGTGATG
1 TGTTCTGAAAAAATAAATTTGACGTGATG
* * *
43999355 TGTTCTGAAAAAATTATTTTGACGAGATG
1 TGTTCTGAAAAAATAAATTTGACGTGATG
43999384 AATTTGTTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 1 0.02
29 42 0.91
30 3 0.07
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (29 bp):
TGTTCTGAAAAAATAAATTTGACGTGATG
Found at i:44002607 original size:59 final size:59
Alignment explanation
Indices: 44002515--44002631 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
44002505 ACATAGAAAT
44002515 AACTTCTAATTTATTAAATGAAACAATATAAAAATAAATTGTACAAAAATATTCAAAAG
1 AACTTCTAATTTATTAAATGAAACAATATAAAAATAAATTGTACAAAAATATTCAAAAG
* *
44002574 AACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
1 AACTTCTAATTTATTAAATGAAACAATATAAAAATAAATTGTACAAAAATATTCAAAA
44002632 ATAAATCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (59 bp):
AACTTCTAATTTATTAAATGAAACAATATAAAAATAAATTGTACAAAAATATTCAAAAG
Found at i:44005281 original size:5 final size:5
Alignment explanation
Indices: 44005271--44005296 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44005261 AACTTCAAAT
44005271 TTTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTTAA TTTAA T
44005297 CATAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:44009087 original size:20 final size:21
Alignment explanation
Indices: 44009062--44009100 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44009052 TTATTTTTTA
44009062 TTTTTTT-AATTTTAAAATAC
1 TTTTTTTAAATTTTAAAATAC
*
44009082 TTTTTTTAAATTTTTAAAT
1 TTTTTTTAAATTTTAAAAT
44009101 TTTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTTAAATTTTAAAATAC
Found at i:44009089 original size:38 final size:38
Alignment explanation
Indices: 44009046--44009186 Score: 99
Period size: 40 Copynumber: 3.6 Consensus size: 38
44009036 ATAATAAATA
* *
44009046 TTTTTATTATTTTTTATTTTTTTAATTTTAAAATACTT
1 TTTTTATTATTTTTAAATTTTTTAATTTTAAAATACTT
* *
44009084 TTTTTA-AATTTTTAAATTTTTAAATTTTTTTAAAATACTT
1 TTTTTATTATTTTTAAATTTTTTAA---TTTTAAAATACTT
** * *
44009124 TTTAAATT-TTTTT-AATTTTAAAATATTTTTAAAATACTT
1 TTTTTATTATTTTTAAATTTT---TTAATTTTAAAATACTT
* *
44009163 TTTTTAATTTTTGTTTTAATTTTT
1 TTTTT-ATTATT-TTTAAATTTTT
44009187 AAAATAAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
37 14 0.18
38 6 0.08
39 22 0.28
40 25 0.32
41 2 0.03
42 4 0.05
43 6 0.08
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (38 bp):
TTTTTATTATTTTTAAATTTTTTAATTTTAAAATACTT
Found at i:44009113 original size:10 final size:10
Alignment explanation
Indices: 44009082--44009142 Score: 60
Period size: 8 Copynumber: 6.4 Consensus size: 10
44009072 TTTAAAATAC
44009082 TTTTTTTAAA
1 TTTTTTTAAA
44009092 --TTTTTAAA
1 TTTTTTTAAA
44009100 --TTTTTAAA
1 TTTTTTTAAA
44009108 TTTTTTTAAAA
1 TTTTTTT-AAA
*
44009119 TACTTTTTAAA
1 T-TTTTTTAAA
44009130 TTTTTTT-AA
1 TTTTTTTAAA
44009139 TTTT
1 TTTT
44009143 AAAATATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 16 0.36
9 6 0.13
10 10 0.22
11 8 0.18
12 5 0.11
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:44009141 original size:39 final size:40
Alignment explanation
Indices: 44009071--44009189 Score: 152
Period size: 39 Copynumber: 2.9 Consensus size: 40
44009061 ATTTTTTTAA
* *
44009071 TTTTAAAATACTTTTTTTAAA-TTTTTAAATTTTTAAATTT
1 TTTTAAAATAC-TTTTTTAAATTTTTTTAATTTTTAAATAT
*
44009111 TTTTAAAATAC-TTTTTAAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTAATTTTTAAATAT
*
44009150 TTTTAAAATACTTTTTTTAATTTTTGTTTTAATTTTTAAA
1 TTTTAAAATAC-TTTTTTAA-ATTT-TTTTAATTTTTAAA
44009190 ATAAATTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
38 8 0.12
39 27 0.39
40 11 0.16
41 7 0.10
42 3 0.04
43 13 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAAATTTTTTTAATTTTTAAATAT
Found at i:44011983 original size:24 final size:24
Alignment explanation
Indices: 44011931--44011992 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
44011921 ATGTTGATTT
44011931 TTTATAAAA-TTAAATCAAATATA
1 TTTATAAAATTTAAATCAAATATA
44011954 TTTATAAAATGTTATAAT-AAA-ATA
1 TTTATAAAAT-TTA-AATCAAATATA
44011978 TTTATAAAA-TTAAAT
1 TTTATAAAATTTAAAT
44011993 ATGTTATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.08
22 3 0.08
23 9 0.25
24 12 0.33
25 6 0.17
26 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TTTATAAAATTTAAATCAAATATA
Found at i:44011994 original size:16 final size:17
Alignment explanation
Indices: 44011973--44012004 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44011963 TGTTATAATA
44011973 AAATAT-TTATAAAATT
1 AAATATGTTATAAAATT
44011989 AAATATGTTATAAAAT
1 AAATATGTTATAAAAT
44012005 CTTATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATATGTTATAAAATT
Found at i:44041449 original size:10 final size:9
Alignment explanation
Indices: 44041424--44041530 Score: 67
Period size: 10 Copynumber: 11.7 Consensus size: 9
44041414 TTAACTTTTA
44041424 ATAAAAAAT
1 ATAAAAAAT
*
44041433 -TAAAATAT
1 ATAAAAAAT
44041441 -TAAAAAAT
1 ATAAAAAAT
*
44041449 ATTAAAAATT
1 A-TAAAAAAT
*
44041459 AGAAAAAAT
1 ATAAAAAAT
44041468 AT-AAAAAT
1 ATAAAAAAT
* *
44041476 CGTAAAAAGT
1 -ATAAAAAAT
44041486 ATAAAAAATT
1 ATAAAAAA-T
* **
44041496 GTAAAATTTT
1 ATAAAA-AAT
44041506 ATAAAAAAT
1 ATAAAAAAT
*
44041515 GTAAAAAATT
1 ATAAAAAA-T
44041525 ATAAAA
1 ATAAAA
44041531 TTTTATAAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 13
0.70 0.17 0.12
Matches are distributed among these distances:
8 20 0.27
9 22 0.30
10 31 0.42
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:44041474 original size:18 final size:16
Alignment explanation
Indices: 44041425--44041492 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 16
44041415 TAACTTTTAA
44041425 TAAAAAAT-TAAAATAT
1 TAAAAAATATAAAA-AT
44041441 TAAAAAATATTAAAAAT
1 TAAAAAATA-TAAAAAT
44041458 TAGAAAAAATATAAAAAT
1 T--AAAAAATATAAAAAT
*
44041476 CGTAAAAAGTATAAAAA
1 --TAAAAAATATAAAAA
44041493 ATTGTAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
16 8 0.18
17 3 0.07
18 25 0.56
19 8 0.18
20 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (16 bp):
TAAAAAATATAAAAAT
Found at i:44041499 original size:19 final size:19
Alignment explanation
Indices: 44041425--44041530 Score: 89
Period size: 19 Copynumber: 5.7 Consensus size: 19
44041415 TAACTTTTAA
*
44041425 TAAAAAAT-TAAAATA-T-
1 TAAAAAATATAAAAAATTG
*
44041441 TAAAAAATATTAAAAATTAG
1 TAAAAAATATAAAAAATT-G
*
44041461 -AAAAAATAT-AAAAATCG
1 TAAAAAATATAAAAAATTG
*
44041478 TAAAAAGTATAAAAAATTG
1 TAAAAAATATAAAAAATTG
**
44041497 TAAAATTTTATAAAAAA-TG
1 TAAAA-AATATAAAAAATTG
44041516 TAAAAAATTATAAAA
1 TAAAAAA-TATAAAA
44041531 TTTTATAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
16 8 0.11
17 6 0.08
18 15 0.21
19 35 0.48
20 9 0.12
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAAAATATAAAAAATTG
Found at i:44041552 original size:21 final size:21
Alignment explanation
Indices: 44041527--44041571 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
44041517 AAAAAATTAT
* *
44041527 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
44041548 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
44041569 AAA
1 AAA
44041572 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:44041555 original size:19 final size:18
Alignment explanation
Indices: 44041533--44041597 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
44041523 TTATAAAATT
44041533 TTATAAAATCGTAAGAAAA
1 TTATAAAATCGTAA-AAAA
44041552 TTATACAAAAT-GTAAAGAAA
1 TTAT--AAAATCGTAAA-AAA
*
44041572 -TATAAATTTCGTAAAAAA
1 TTATAAA-ATCGTAAAAAA
44041590 TTATAAAA
1 TTATAAAA
44041598 ATTATCGTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
17 3 0.08
18 4 0.11
19 19 0.50
20 7 0.18
21 5 0.13
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (18 bp):
TTATAAAATCGTAAAAAA
Found at i:44041820 original size:19 final size:19
Alignment explanation
Indices: 44041792--44041844 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
44041782 ATTTTTATAA
*
44041792 AAAATATAAAATTTTAAAT
1 AAAATTTAAAATTTTAAAT
* * *
44041811 -AAATTTTAAATTTTTATT
1 AAAATTTAAAATTTTAAAT
44041829 AAAATTTAATAATTTT
1 AAAATTTAA-AATTTT
44041845 TCTAAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 14 0.52
19 7 0.26
20 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATTTAAAATTTTAAAT
Found at i:44042437 original size:29 final size:28
Alignment explanation
Indices: 44042380--44042455 Score: 64
Period size: 31 Copynumber: 2.5 Consensus size: 28
44042370 AAGAAAAATC
**
44042380 AATAAAAATTATAGAAATTATTAAA-TTTT
1 AATAAAAA-TATA-AAAAAATTAAATTTTT
44042409 AATAAAAATATAAAAAAATTAGAATTTTTTT
1 AATAAAAATATAAAAAAATTA-AA--TTTTT
*
44042440 TATAAAAATAGTAAAA
1 AATAAAAATA-TAAAA
44042456 TATCATGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 7 0.18
28 6 0.15
29 8 0.21
31 13 0.33
32 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (28 bp):
AATAAAAATATAAAAAAATTAAATTTTT
Found at i:44045015 original size:41 final size:41
Alignment explanation
Indices: 44044969--44045051 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
44044959 ATTCAATAGG
44044969 TAAGTTGTGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
1 TAAGTTGTGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
44045010 TAAGTTGTGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
1 TAAGTTGTGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
44045051 T
1 T
44045052 CTATCATCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (41 bp):
TAAGTTGTGTTAAAGGTTAAGTAGGTTAAATCCTAAGTGCC
Found at i:44045797 original size:6 final size:6
Alignment explanation
Indices: 44045788--44045823 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
44045778 GGAAAATAAA
* *
44045788 AAAAAT AAAAGT AAAAAT AAAAAT AAAAAG AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
44045824 GAATAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:44047020 original size:57 final size:57
Alignment explanation
Indices: 44046931--44047046 Score: 189
Period size: 57 Copynumber: 2.0 Consensus size: 57
44046921 AGTGAGTTCC
* * *
44046931 TAAAAGAATACAATACATAATATTATTGATAGTACAACTGAACCTTTCTGAGGGACT
1 TAAAAGAATACAATACAAAATATTACTAATAGTACAACTGAACCTTTCTGAGGGACT
44046988 TAAAAGAATATC-ATACAAAATATTACTAATAGTACAACTGAACCTTTCTGAGGGACT
1 TAAAAGAATA-CAATACAAAATATTACTAATAGTACAACTGAACCTTTCTGAGGGACT
44047045 TA
1 TA
44047047 CACACATTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 54 0.98
58 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (57 bp):
TAAAAGAATACAATACAAAATATTACTAATAGTACAACTGAACCTTTCTGAGGGACT
Found at i:44050447 original size:42 final size:42
Alignment explanation
Indices: 44050400--44050507 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
44050390 GTGCTAAATA
*
44050400 GAAACCTATAAGGGTTGAAC-GAAAGC-TCATAAGAGCTGAACG
1 GAAACCTATAAGGGTTAAACTG-AAGCTTCA-AAGAGCTGAACG
* * * * *
44050442 GAAACCCAGAAGGGTTAAACTGAAGCTTGAAAGAGTTGAACT
1 GAAACCTATAAGGGTTAAACTGAAGCTTCAAAGAGCTGAACG
*
44050484 GAAACCTATTAA-GGTTAAATTGAA
1 GAAACCTA-TAAGGGTTAAACTGAA
44050508 ACTCATATGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
42 49 0.91
43 5 0.09
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (42 bp):
GAAACCTATAAGGGTTAAACTGAAGCTTCAAAGAGCTGAACG
Found at i:44055052 original size:26 final size:26
Alignment explanation
Indices: 44055015--44055198 Score: 190
Period size: 26 Copynumber: 7.1 Consensus size: 26
44055005 TAATACTTGT
*
44055015 TAAATATTCACCGGCTCAAAGCCTGC
1 TAAATAATCACCGGCTCAAAGCCTGC
* *
44055041 TAAATAAACACCGGTTCAAAGCCTGC
1 TAAATAATCACCGGCTCAAAGCCTGC
* * * *
44055067 TAAATAAACACTGACTCATAGCCTGC
1 TAAATAATCACCGGCTCAAAGCCTGC
* ** *
44055093 TAAGTAATCACCGGAGCAAGGCCTGC
1 TAAATAATCACCGGCTCAAAGCCTGC
* *
44055119 TAAATAATCATCGGCTCATAGCCTGC
1 TAAATAATCACCGGCTCAAAGCCTGC
* * *
44055145 TAAGTAATCACCGTCTC-AAGGCTAGC
1 TAAATAATCACCGGCTCAAAGCCT-GC
* *
44055171 TAAATACTCATCGGCTCAAAGCCTGC
1 TAAATAATCACCGGCTCAAAGCCTGC
44055197 TA
1 TA
44055199 TTCAGGTACA
Statistics
Matches: 125, Mismatches: 31, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
25 4 0.03
26 116 0.93
27 5 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (26 bp):
TAAATAATCACCGGCTCAAAGCCTGC
Found at i:44056063 original size:23 final size:22
Alignment explanation
Indices: 44056039--44056082 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
44056029 TTAATTTAAT
44056039 TTTTTAAC-TAATAAAAC-ATA
1 TTTTTAACATAATAAAACAATA
44056059 TATTTTAACATAATAAAACAATA
1 T-TTTTAACATAATAAAACAATA
44056082 T
1 T
44056083 CAACCGTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.05
21 7 0.33
22 9 0.43
23 4 0.19
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTTAACATAATAAAACAATA
Found at i:44056066 original size:21 final size:21
Alignment explanation
Indices: 44056040--44056082 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
44056030 TAATTTAATT
44056040 TTTTAAC-TAATAAAACATATA
1 TTTTAACATAATAAAACA-ATA
44056061 TTTTAACATAATAAAACAATA
1 TTTTAACATAATAAAACAATA
44056082 T
1 T
44056083 CAACCGTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
TTTTAACATAATAAAACAATA
Found at i:44059509 original size:32 final size:32
Alignment explanation
Indices: 44059473--44059538 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
44059463 GCTTCCGCAA
44059473 AGTATAGCATTTTGAAAATGAATCTCGGTTTG
1 AGTATAGCATTTTGAAAATGAATCTCGGTTTG
44059505 AGTATAGCATTTTGAAAATGAATCTCGGTTTG
1 AGTATAGCATTTTGAAAATGAATCTCGGTTTG
44059537 AG
1 AG
44059539 AATTAATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (32 bp):
AGTATAGCATTTTGAAAATGAATCTCGGTTTG
Found at i:44060309 original size:23 final size:23
Alignment explanation
Indices: 44060257--44060315 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
44060247 AAATATTAGT
* *
44060257 TTATTAATATTTTAATTTGATTT
1 TTATTAATATATTAATTTGATTG
* *
44060280 TTTTTAATGATATT-ATTTTATTG
1 TTATTAAT-ATATTAATTTGATTG
*
44060303 TTATTAATTTATT
1 TTATTAATATATT
44060316 TAGTATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 4 0.14
23 21 0.72
24 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTATTAATATATTAATTTGATTG
Found at i:44068354 original size:17 final size:17
Alignment explanation
Indices: 44068334--44068372 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
44068324 ATTGAACGAT
44068334 GTTTTGGTTGAATTTAG
1 GTTTTGGTTGAATTTAG
44068351 GTTTTGGTTGAATTTAG
1 GTTTTGGTTGAATTTAG
44068368 GTTTT
1 GTTTT
44068373 AGCGCTACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.56
Consensus pattern (17 bp):
GTTTTGGTTGAATTTAG
Found at i:44068630 original size:17 final size:17
Alignment explanation
Indices: 44068608--44068648 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
44068598 TTTTGAGCCA
44068608 TGTGGGCCACACAAGCG
1 TGTGGGCCACACAAGCG
*
44068625 TGTGGGCCACACAAGTG
1 TGTGGGCCACACAAGCG
44068642 TGTGGGC
1 TGTGGGC
44068649 TTACATGGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (17 bp):
TGTGGGCCACACAAGCG
Found at i:44077787 original size:20 final size:20
Alignment explanation
Indices: 44077757--44077838 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
44077747 ACTTCAGTGT
*
44077757 CCCTAATTGCACATTCGTGC
1 CCCTGATTGCACATTCGTGC
* *
44077777 CCCTGAATGCAC-TCCGGTGC
1 CCCTGATTGCACATTC-GTGC
*
44077797 CCTTGATTGCACACTT-GTGC
1 CCCTGATTGCACA-TTCGTGC
* * *
44077817 TCCTGATTGCACTTTGGTGC
1 CCCTGATTGCACATTCGTGC
44077837 CC
1 CC
44077839 ATGTTTTGCA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.08
20 43 0.90
22 1 0.02
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.30
Consensus pattern (20 bp):
CCCTGATTGCACATTCGTGC
Found at i:44077806 original size:40 final size:40
Alignment explanation
Indices: 44077762--44077838 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
44077752 AGTGTCCCTA
44077762 ATTGCACA-TTCGTGCCCCTGAATGCACTCCGGTGCCCTTG
1 ATTGCACACTT-GTGCCCCTGAATGCACTCCGGTGCCCTTG
* * **
44077802 ATTGCACACTTGTGCTCCTGATTGCACTTTGGTGCCC
1 ATTGCACACTTGTGCCCCTGAATGCACTCCGGTGCCC
44077839 ATGTTTTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.14, C:0.32, G:0.22, T:0.31
Consensus pattern (40 bp):
ATTGCACACTTGTGCCCCTGAATGCACTCCGGTGCCCTTG
Found at i:44083619 original size:20 final size:20
Alignment explanation
Indices: 44083570--44083609 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
44083560 TCTGTTTTTA
44083570 AGTGTTTTTGGAAAATAGTT
1 AGTGTTTTTGGAAAATAGTT
44083590 AGTGTTTTTGGAAAATAGTT
1 AGTGTTTTTGGAAAATAGTT
44083610 GTTATGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (20 bp):
AGTGTTTTTGGAAAATAGTT
Found at i:44084773 original size:27 final size:27
Alignment explanation
Indices: 44084393--44084765 Score: 440
Period size: 27 Copynumber: 13.9 Consensus size: 27
44084383 TATAACGATC
44084393 ATTTTACCCTTC-AGGGATATTTCAGTA
1 ATTTTACCCTTCGAGGG-TATTTCAGTA
* **
44084420 ATTTTACCCTTTGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
*
44084447 ATTTTACCCTTTGAGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* *
44084474 ATTTTATCCTTC-AGAGGTATTTCGGTA
1 ATTTTACCCTTCGAG-GGTATTTCAGTA
* *
44084501 ATTTTATCCTTC-AGAGGTATTTCGGTA
1 ATTTTACCCTTCGAG-GGTATTTCAGTA
* * *
44084528 ATTTTACTCTTTGAGGGTATTTCTGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
*
44084555 ATTTTACCCCTT-GAGGTTATTTCAGTA
1 ATTTTA-CCCTTCGAGGGTATTTCAGTA
44084582 ATTTTACCCTTCG-GGTGTATTTCAGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
*
44084609 ATTTTACCCTTTGAGGGTATTTTC-GTA
1 ATTTTACCCTTCGAGGGTA-TTTCAGTA
* * *
44084636 A-TTTATCGTTCGGGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
*
44084662 ATTTTACCCTTCGGGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
*
44084689 ATTTTACCCTTTGAGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
*
44084716 ATTTTACCCTTCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
44084743 ATTTTACCCTTCGAGGGTATTTC
1 ATTTTACCCTTCGAGGGTATTTC
44084766 GGTCATTTAA
Statistics
Matches: 307, Mismatches: 25, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
25 4 0.01
26 28 0.09
27 258 0.84
28 17 0.06
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:44088364 original size:21 final size:21
Alignment explanation
Indices: 44088338--44088405 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
44088328 AGAGTGTAAA
*
44088338 CAGGGGCACGTAGGTGCAATT
1 CAGGGGCACGTAAGTGCAATT
* * *
44088359 CAGGGGTATCG-AAGTACAAAT
1 CAGGGGCA-CGTAAGTGCAATT
* *
44088380 -AGGGGCACATATGTGCAATT
1 CAGGGGCACGTAAGTGCAATT
44088400 CAGGGG
1 CAGGGG
44088406 TGTCGAGGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.37
21 19 0.54
22 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.19
Consensus pattern (21 bp):
CAGGGGCACGTAAGTGCAATT
Found at i:44088384 original size:41 final size:41
Alignment explanation
Indices: 44088339--44088483 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 41
44088329 GAGTGTAAAC
* *
44088339 AGGGGCACGTAGGTGCAATTCAGGGGTATCGAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
* *
44088380 AGGGGCACATATGTGCAATTCAGGGGTGTCGAGGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
* * * *
44088421 AGGGGCATATATGTGCAATTTAGGGGTACCGAAGTACAAAC
1 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
* **
44088462 AGAGGCACGCATGTGCAATTCA
1 AGGGGCACATATGTGCAATTCA
44088484 AGGAATAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (41 bp):
AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAAT
Found at i:44096107 original size:69 final size:69
Alignment explanation
Indices: 44095996--44096132 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
44095986 GTGGACATGG
44095996 TATTCTTGTGAATTTTGAATAGTTTTGGATTGTACTAATATGGATATGAATTCAACAAGCTTAGG
1 TATTCTTGTGAATTTTGAATAGTTTTGGATTGTACTAATATGGATATGAATTCAACAAGCTTAGG
44096061 GTAA
66 GTAA
*
44096065 TATTCTTGTGAATTTTGAATAGTTTTGTATTGTACTAATATGGATATGAATTCAACAAGCTTAGG
1 TATTCTTGTGAATTTTGAATAGTTTTGGATTGTACTAATATGGATATGAATTCAACAAGCTTAGG
44096130 GTA
66 GTA
44096133 TTTGGAAATT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (69 bp):
TATTCTTGTGAATTTTGAATAGTTTTGGATTGTACTAATATGGATATGAATTCAACAAGCTTAGG
GTAA
Found at i:44096697 original size:20 final size:20
Alignment explanation
Indices: 44096674--44096795 Score: 59
Period size: 20 Copynumber: 6.1 Consensus size: 20
44096664 ACTTTGGTGT
44096674 CCCTGATTGCACATTCGTGC
1 CCCTGATTGCACATTCGTGC
**
44096694 CCCTGAACGCAC-TTCGGTGC
1 CCCTGATTGCACATTC-GTGC
* ** *
44096714 CCTTGACAGTACATTCGTGC
1 CCCTGATTGCACATTCGTGC
* * * *
44096734 CCTTTAATGCAC-TCCAGTGC
1 CCCTGATTGCACATTC-GTGC
* * *
44096754 CCCTGATTGCTCACTCATGC
1 CCCTGATTGCACATTCGTGC
* * * *
44096774 TCCTGATTACACTTTGGTGC
1 CCCTGATTGCACATTCGTGC
44096794 CC
1 CC
44096796 TTGTTTTGCA
Statistics
Matches: 72, Mismatches: 26, Indels: 8
0.68 0.25 0.08
Matches are distributed among these distances:
19 5 0.07
20 63 0.88
21 4 0.06
ACGTcount: A:0.16, C:0.35, G:0.19, T:0.30
Consensus pattern (20 bp):
CCCTGATTGCACATTCGTGC
Found at i:44096707 original size:40 final size:40
Alignment explanation
Indices: 44096650--44096735 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
44096640 TTGCACCTCG
* **
44096650 GTGCCCCTGTAAACACTTTGGTGTCCC-TGATTGCACATTC
1 GTGCCCCTGTAAACACTTCGGTG-CCCTTGACAGCACATTC
* *
44096690 GTGCCCCTG-AACGCACTTCGGTGCCCTTGACAGTACATTC
1 GTGCCCCTGTAA-ACACTTCGGTGCCCTTGACAGCACATTC
44096730 GTGCCC
1 GTGCCC
44096736 TTTAATGCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
39 5 0.13
40 34 0.87
ACGTcount: A:0.16, C:0.34, G:0.22, T:0.28
Consensus pattern (40 bp):
GTGCCCCTGTAAACACTTCGGTGCCCTTGACAGCACATTC
Found at i:44096716 original size:19 final size:20
Alignment explanation
Indices: 44096642--44096715 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
44096632 TGCCTTTATT
*
44096642 GCACCTCGGTGCCCCTGTAA-
1 GCACTTCGGTGCCCCTG-AAC
* * * **
44096662 ACACTTTGGTGTCCCTGATT
1 GCACTTCGGTGCCCCTGAAC
44096682 GCACATTC-GTGCCCCTGAAC
1 GCAC-TTCGGTGCCCCTGAAC
44096702 GCACTTCGGTGCCC
1 GCACTTCGGTGCCC
44096716 TTGACAGTAC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.15, C:0.36, G:0.23, T:0.26
Consensus pattern (20 bp):
GCACTTCGGTGCCCCTGAAC
Found at i:44104174 original size:29 final size:27
Alignment explanation
Indices: 44104025--44104174 Score: 79
Period size: 28 Copynumber: 5.3 Consensus size: 27
44104015 TCAGGTTGTG
* * * *
44104025 CCACGAAGGCATTTCCTTTCAGATATAA
1 CCACAAAGGC-TTTCCTTTTAGAGATTA
** *
44104053 CCATGAAGGC-TTCC-TTTACGGAGATTG
1 CCACAAAGGCTTTCCTTTTA--GAGATTA
* *
44104080 CCACAAAGGCTTTCCTATCTAGAGTTTA
1 CCACAAAGGCTTTCCT-TTTAGAGATTA
* * * * *
44104108 CCACAGAGGTTTTCCTTTGATAAAGGTCA
1 CCACAAAGGCTTTCCTTT--TAGAGATTA
*
44104137 CCACGAAGGCGTTTCCTTTTAGAGATTA
1 CCACAAAGGC-TTTCCTTTTAGAGATTA
44104165 GCCACAAAGG
1 -CCACAAAGG
44104175 AGTTCTTTAG
Statistics
Matches: 90, Mismatches: 23, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
25 3 0.03
26 4 0.04
27 13 0.14
28 38 0.42
29 21 0.23
30 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (27 bp):
CCACAAAGGCTTTCCTTTTAGAGATTA
Found at i:44104196 original size:15 final size:16
Alignment explanation
Indices: 44104176--44104205 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44104166 CCACAAAGGA
44104176 GTTCTTT-AGAGGTTC
1 GTTCTTTAAGAGGTTC
44104191 GTTCTTTAAGAGGTT
1 GTTCTTTAAGAGGTT
44104206 TGCCACGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.47
Consensus pattern (16 bp):
GTTCTTTAAGAGGTTC
Found at i:44104514 original size:53 final size:54
Alignment explanation
Indices: 44104423--44104532 Score: 161
Period size: 53 Copynumber: 2.1 Consensus size: 54
44104413 TTCCTTAAAT
*
44104423 TTTTCCATATGATGTCATAACCCACCAATTACAGTCTTACATAATATGATCTTC
1 TTTTCCATATGATGTCATAACCCACCAATTACAATCTTACATAATATGATCTTC
* * *
44104477 TTTT-CATATGATGTCATAACCCACTAGA-TACAATCTTACATGATATGGTCTTC
1 TTTTCCATATGATGTCATAACCCACCA-ATTACAATCTTACATAATATGATCTTC
44104530 TTT
1 TTT
44104533 GGTGTCATGG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 46 0.90
54 5 0.10
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (54 bp):
TTTTCCATATGATGTCATAACCCACCAATTACAATCTTACATAATATGATCTTC
Found at i:44107162 original size:23 final size:24
Alignment explanation
Indices: 44107115--44107170 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
44107105 TATGCAGAAG
* * *
44107115 AAAATTGAAACGATAACAAGCAAA
1 AAAATGGAAACGAGAACAAGAAAA
44107139 AAAATGGAAACGGAGAA-AAGAAAA
1 AAAATGGAAAC-GAGAACAAGAAAA
44107163 AAAATGGA
1 AAAATGGA
44107171 GAAGATGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.64, C:0.07, G:0.20, T:0.09
Consensus pattern (24 bp):
AAAATGGAAACGAGAACAAGAAAA
Found at i:44109772 original size:21 final size:21
Alignment explanation
Indices: 44109748--44109800 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
44109738 TTTCATAATT
44109748 TTTTTAAAATTA-TTTTACAA
1 TTTTTAAAATTATTTTTACAA
* *
44109768 CTTTTGAAAA-TATTTTTATAA
1 -TTTTTAAAATTATTTTTACAA
44109789 TTTTTAAGAATT
1 TTTTTAA-AATT
44109801 TTAACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.31
21 17 0.65
22 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTATTTTTACAA
Found at i:44128805 original size:37 final size:37
Alignment explanation
Indices: 44128755--44128875 Score: 233
Period size: 37 Copynumber: 3.2 Consensus size: 37
44128745 GAAATCAAAG
44128755 ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
1 ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
44128792 ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
1 ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
44128829 ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
1 ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
44128866 ATTTGGATTT
1 A-TTGGATTT
44128876 CAAAAATAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 75 0.90
38 8 0.10
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (37 bp):
ATTGGATTTTGACTTTGTACATCATCAAAGTTCACAT
Found at i:44129740 original size:33 final size:33
Alignment explanation
Indices: 44129693--44129767 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
44129683 TGTTTGAATA
*
44129693 CTTTCTTCACTCGTTTCTTGTACAAGT-TCTCTTT
1 CTTT-TTCACTCGTTTATTGTAC-AGTCTCTCTTT
* *
44129727 CTTTTTCACTCGTTTATTTTTCAGTCTCTCTTT
1 CTTTTTCACTCGTTTATTGTACAGTCTCTCTTT
44129760 CTTTTTCA
1 CTTTTTCA
44129768 TGCTCTATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 3 0.08
33 30 0.81
34 4 0.11
ACGTcount: A:0.11, C:0.25, G:0.07, T:0.57
Consensus pattern (33 bp):
CTTTTTCACTCGTTTATTGTACAGTCTCTCTTT
Found at i:44129773 original size:18 final size:17
Alignment explanation
Indices: 44129720--44129773 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
44129710 TTGTACAAGT
44129720 TCTCTTTCTTTTTCA-C
1 TCTCTTTCTTTTTCAGC
* *
44129736 TC-GTTTATTTTTCAGTC
1 TCTCTTTCTTTTTCAG-C
44129753 TCTCTTTCTTTTTCATGC
1 TCTCTTTCTTTTTCA-GC
44129771 TCT
1 TCT
44129774 ATTCTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 3 0.10
18 14 0.47
19 1 0.03
ACGTcount: A:0.07, C:0.26, G:0.06, T:0.61
Consensus pattern (17 bp):
TCTCTTTCTTTTTCAGC
Found at i:44138167 original size:68 final size:68
Alignment explanation
Indices: 44138055--44138258 Score: 239
Period size: 68 Copynumber: 3.0 Consensus size: 68
44138045 CTTTGTCTTG
* * * * * * * *
44138055 GCAGACTTCACATGTTGCCATAGCCCAGTTATGGTCTTACACAATATAATCTCATGTTTACTATT
1 GCAGACTTCATATATTGTCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTACTATC
*
44138120 GTA
66 CTA
*
44138123 GCGGACTTCATATATT-TCCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTACTAT
1 GCAGACTTCATATATTGT-CATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTACTAT
*
44138187 CCTG
65 CCTA
* * * ** *
44138191 GCAGACTTCATTTATTGTCATACCCTAGCTATGGTCTTATGCAATATAATCTCATGTTTACTGTC
1 GCAGACTTCATATATTGTCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTACTATC
44138256 CTA
66 CTA
44138259 TCGAACTTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
68 114 0.99
69 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (68 bp):
GCAGACTTCATATATTGTCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTACTATC
CTA
Found at i:44138267 original size:68 final size:68
Alignment explanation
Indices: 44138084--44138299 Score: 247
Period size: 68 Copynumber: 3.2 Consensus size: 68
44138074 ATAGCCCAGT
** *
44138084 TATGGTCTTACACAATATAATCTCATGTTTACTATTGTAGCGGACTTCATATATT-TCCATAACC
1 TATGGTCTTACACAATATAATCTCATGTTTACTATCCTAGCGAACTTCATATATTGT-CATAACC
44138148 TAGC
65 TAGC
* * * *
44138152 TATAGTCTTACACAATATAATCTCATGTTTACTATCCTGGC-AGACTTCATTTATTGTCATACCC
1 TATGGTCTTACACAATATAATCTCATGTTTACTATCCTAGCGA-ACTTCATATATTGTCATAACC
44138216 TAGC
65 TAGC
** * * * * * **
44138220 TATGGTCTTATGCAATATAATCTCATGTTTACTGTCCTATCGAACTTCATGTGTTGCCATAGTCT
1 TATGGTCTTACACAATATAATCTCATGTTTACTATCCTAGCGAACTTCATATATTGTCATAACCT
44138285 AGC
66 AGC
*
44138288 TATGGTTTTACA
1 TATGGTCTTACA
44138300 AATGAAACTT
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
68 122 0.98
69 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (68 bp):
TATGGTCTTACACAATATAATCTCATGTTTACTATCCTAGCGAACTTCATATATTGTCATAACCT
AGC
Found at i:44138299 original size:136 final size:136
Alignment explanation
Indices: 44138053--44138299 Score: 307
Period size: 136 Copynumber: 1.8 Consensus size: 136
44138043 TTCTTTGTCT
* *
44138053 TGGCAGACTTCACATGTTGCCATAGCCCAGTTATGGTCTTACACAATATAATCTCATGTTTACTA
1 TGGCAGACTTCACATATTGCCATAGCCCAGCTATGGTCTTACACAATATAATCTCATGTTTACTA
** * *
44138118 TTGTAGCGGACTTCATATATTTCCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTA
66 TCCTAGCGAACTTCATATATTGCCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTA
44138183 CTATCC
131 CTATCC
** * **
44138189 TGGCAGACTTCATTTATTGTCATA-CCCTAGCTATGGTCTTATGCAATATAATCTCATGTTTACT
1 TGGCAGACTTCACATATTGCCATAGCCC-AGCTATGGTCTTACACAATATAATCTCATGTTTACT
* * * * ** * *
44138253 GTCCTATCGAACTTCATGTGTTGCCATAGTCTAGCTATGGTTTTACA
65 ATCCTAGCGAACTTCATATATTGCCATAACCTAGCTATAGTCTTACA
44138300 AATGAAACTT
Statistics
Matches: 91, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
135 3 0.03
136 88 0.97
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (136 bp):
TGGCAGACTTCACATATTGCCATAGCCCAGCTATGGTCTTACACAATATAATCTCATGTTTACTA
TCCTAGCGAACTTCATATATTGCCATAACCTAGCTATAGTCTTACACAATATAATCTCATGTTTA
CTATCC
Found at i:44140983 original size:43 final size:43
Alignment explanation
Indices: 44140904--44140989 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
44140894 TCATTTCTCA
* *
44140904 TTTCTCATCTCATAATCGTTTATCATATTTTCCATTTTAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
* *
44140947 TTTCTCATCTTATATTCATTTATCA-ACTTTGT-CATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATA-TTT-TCCATTTCAATAT
44140990 CAATCACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
Found at i:44153039 original size:33 final size:33
Alignment explanation
Indices: 44152992--44153064 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
44152982 TGTTTGAATA
*
44152992 CTTTCTTCACTCGTTTCTTGTACAAGT-TCTCTTT
1 CTTT-TTCACTCGTTTATTGTAC-AGTCTCTCTTT
* *
44153026 CTTTTTCACTCGTTTATTTTTCAGTCTCTCTTT
1 CTTTTTCACTCGTTTATTGTACAGTCTCTCTTT
44153059 CTTTTT
1 CTTTTT
44153065 TCATGCTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 3 0.09
33 28 0.80
34 4 0.11
ACGTcount: A:0.10, C:0.25, G:0.07, T:0.59
Consensus pattern (33 bp):
CTTTTTCACTCGTTTATTGTACAGTCTCTCTTT
Found at i:44155215 original size:23 final size:23
Alignment explanation
Indices: 44155189--44155235 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
44155179 TCTTGAAGTG
44155189 TTAGCTGAACAGCTCACAACTAT
1 TTAGCTGAACAGCTCACAACTAT
44155212 TTAGCTGAACAGCTCACAACTAT
1 TTAGCTGAACAGCTCACAACTAT
44155235 T
1 T
44155236 GGCAATGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAGCTGAACAGCTCACAACTAT
Found at i:44157424 original size:41 final size:41
Alignment explanation
Indices: 44157379--44157468 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 41
44157369 TTCTTCTTTA
* * *
44157379 TAGTTTTAGGGTT-TTAATTTATGTTTCTTTTTTGTTGTA-AT
1 TAGTTTTAGAGTTGTTAA-TTAAG-TTCATTTTTGTTGTACAT
* * *
44157420 TAGTTTCATAGTTGTTAATTAAGTTCATTTTTGTTGTACCT
1 TAGTTTTAGAGTTGTTAATTAAGTTCATTTTTGTTGTACAT
44157461 TAGTTTTA
1 TAGTTTTA
44157469 TTTACATGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
40 14 0.35
41 22 0.55
42 4 0.10
ACGTcount: A:0.20, C:0.06, G:0.16, T:0.59
Consensus pattern (41 bp):
TAGTTTTAGAGTTGTTAATTAAGTTCATTTTTGTTGTACAT
Found at i:44159320 original size:68 final size:68
Alignment explanation
Indices: 44159094--44159336 Score: 222
Period size: 68 Copynumber: 3.6 Consensus size: 68
44159084 TTTTGTCCTG
* * * * * *
44159094 GCGGACTTCACATGT-TGCCATAGCCCAACGATGGTCTTACATAATATAATCT-ATGTTTACTAT
1 GCGGACTTCATAT-TCTGCCATAGCCTAGCTATGGTCTTACGTAATATAATCTCATGTTTACTAC
**
44159157 TGTA
65 CCTA
* * * * *
44159161 GCGGACTTCATATAT-TTCCATAACCTAGCTATAGTCTTACGTAATATAATCTTATGTTTACTAT
1 GCGGACTTCATAT-TCTGCCATAGCCTAGCTATGGTCTTACGTAATATAATCTCATGTTTACTAC
*
44159225 CCTG
65 CCTA
* * ** * * *
44159229 GCAGACTTCATATACTGTTATAGCCTAGCTATGGTTTTATGTAATATAATCTCATGTTTACTGCC
1 GCGGACTTCATATTCTGCCATAGCCTAGCTATGGTCTTACGTAATATAATCTCATGTTTACTACC
44159294 CTA
66 CTA
** * *
44159297 TTGGACTTCATATTCTGCCATAGCCCAACTATGGTCTTAC
1 GCGGACTTCATATTCTGCCATAGCCTAGCTATGGTCTTAC
44159337 AAATGAAACT
Statistics
Matches: 139, Mismatches: 35, Indels: 3
0.79 0.20 0.02
Matches are distributed among these distances:
67 43 0.31
68 96 0.69
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (68 bp):
GCGGACTTCATATTCTGCCATAGCCTAGCTATGGTCTTACGTAATATAATCTCATGTTTACTACC
CTA
Found at i:44162854 original size:43 final size:43
Alignment explanation
Indices: 44162805--44162890 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
44162795 TCATATTTCA
*
44162805 TTTCTCATCTCATAATT-ATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCAT-ATTCATTTATCATATTTTCCATTTCAATAT
* *
44162848 TTTCTCATCTCATATTCATTTATCATCTTTTTCATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATATTTTCCATTTCAATAT
44162891 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (43 bp):
TTTCTCATCTCATATTCATTTATCATATTTTCCATTTCAATAT
Found at i:44162862 original size:15 final size:15
Alignment explanation
Indices: 44162805--44162863 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
44162795 TCATATTTCA
44162805 TTTCTCATCTCATAAT
1 TTTCTCATCTCAT-AT
*
44162821 TAT-T--TCTCATAT
1 TTTCTCATCTCATAT
*
44162833 TTTC-CATTTCAATAT
1 TTTCTCATCTC-ATAT
44162848 TTTCTCATCTCATAT
1 TTTCTCATCTCATAT
44162863 T
1 T
44162864 CATTTATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 3 0.09
15 14 0.41
16 7 0.21
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTCTCATCTCATAT
Found at i:44164078 original size:15 final size:15
Alignment explanation
Indices: 44164055--44164090 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44164045 ATTTCATTTC
* *
44164055 ATTTGTTATTATTAA
1 ATTTATTATTACTAA
44164070 ATTTATTATTACTAA
1 ATTTATTATTACTAA
44164085 ATTTAT
1 ATTTAT
44164091 AATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTATTATTACTAA
Found at i:44171708 original size:11 final size:10
Alignment explanation
Indices: 44171677--44171704 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
44171667 AACTTGGGAC
44171677 CTCCCAAACA
1 CTCCCAAACA
44171687 CTCCCAAACA
1 CTCCCAAACA
44171697 CTCCCAAA
1 CTCCCAAA
44171705 ACACATAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (10 bp):
CTCCCAAACA
Found at i:44172016 original size:42 final size:42
Alignment explanation
Indices: 44171965--44172050 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
44171955 TATACAAAGA
* *
44171965 AAAAATAAATGAACCTCCACACCTGGGCCTCTAAATGTAATG
1 AAAAATAAATGAACCTCCACACCTGAGCCTCTAAATGCAATG
*
44172007 AAAAGTAAATGAACCTCCACACCTGAGCCTCTAAATGCAATG
1 AAAAATAAATGAACCTCCACACCTGAGCCTCTAAATGCAATG
44172049 AA
1 AA
44172051 TGCTTTCCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (42 bp):
AAAAATAAATGAACCTCCACACCTGAGCCTCTAAATGCAATG
Found at i:44178944 original size:40 final size:40
Alignment explanation
Indices: 44178878--44178976 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
44178868 GATTCATGGC
* *
44178878 TACCAATGTATAAACAGGGGCACGTATGTGCAATCAAGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATCAAGGG
* *
44178918 TACCGAAGTACAAACAGGGG-ACCGTATGTGCAATCAGGGG
1 TACCAAAGTACAAACAGGGGCA-CGTATGTGCAATCAAGGG
44178958 TACCAAAGTACAAACAGGG
1 TACCAAAGTACAAACAGGG
44178977 ATAATTATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 1 0.02
40 52 0.98
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.16
Consensus pattern (40 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCAATCAAGGG
Found at i:44178957 original size:20 final size:20
Alignment explanation
Indices: 44178900--44178957 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
44178890 AACAGGGGCA
*
44178900 CGTATGTGCAATCAAGGGTAC
1 CGTATGTGCAATC-AGGGGAC
* * *
44178921 CG-AAGTACAAACAGGGGAC
1 CGTATGTGCAATCAGGGGAC
44178940 CGTATGTGCAATCAGGGG
1 CGTATGTGCAATCAGGGG
44178958 TACCAAAGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 8 0.28
20 19 0.66
21 2 0.07
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.17
Consensus pattern (20 bp):
CGTATGTGCAATCAGGGGAC
Found at i:44178975 original size:20 final size:20
Alignment explanation
Indices: 44178915--44178976 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
44178905 GTGCAATCAA
*
44178915 GGGTACCGAAGTACAAACAG
1 GGGTACCAAAGTACAAACAG
* * * *
44178935 GGG-ACCGTATGTGCAATCAG
1 GGGTACC-AAAGTACAAACAG
44178955 GGGTACCAAAGTACAAACAG
1 GGGTACCAAAGTACAAACAG
44178975 GG
1 GG
44178977 ATAATTATCT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.13
Consensus pattern (20 bp):
GGGTACCAAAGTACAAACAG
Found at i:44192065 original size:26 final size:26
Alignment explanation
Indices: 44192036--44192166 Score: 163
Period size: 26 Copynumber: 5.0 Consensus size: 26
44192026 GAGGAAGTAC
* *
44192036 ACTGTTACTAGTAGTTTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
* * *
44192062 ACTGTTATTGGTAGCTTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
* * *
44192088 ACTGTTATTGGCAGCCTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
*
44192114 ACTATTACTAGCAGCTTTGCTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
* *
44192140 ACTATTACTAGCAGCTTTACTGCGAT
1 ACTGTTACTAGCAGCTTTGCTGCGAT
44192166 A
1 A
44192167 TTGGTGTGTT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 95 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
ACTGTTACTAGCAGCTTTGCTGCGAT
Found at i:44209131 original size:22 final size:21
Alignment explanation
Indices: 44209101--44209158 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
44209091 ATGCAATCGT
*
44209101 AGATTTGATATGTAATCTAAG
1 AGATTTGATTTGTAATCTAAG
* *
44209122 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTAAG
44209145 AGATTTGATTTGTA
1 AGATTTGATTTGTA
44209159 GATACCATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.45
23 11 0.35
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTAAG
Found at i:44221985 original size:5 final size:5
Alignment explanation
Indices: 44221975--44222092 Score: 236
Period size: 5 Copynumber: 23.6 Consensus size: 5
44221965 AATTATTGTA
44221975 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
44222025 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
44222075 TATTG TATTG TATTG TAT
1 TATTG TATTG TATTG TAT
44222093 ACATGATTGG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 113 1.00
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.60
Consensus pattern (5 bp):
TATTG
Found at i:44228622 original size:18 final size:18
Alignment explanation
Indices: 44228599--44228635 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
44228589 ACACAACTAT
44228599 ATAATTTAATATTTTAAA
1 ATAATTTAATATTTTAAA
44228617 ATAATTTAATATTTTAAA
1 ATAATTTAATATTTTAAA
44228635 A
1 A
44228636 ATATTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTTAATATTTTAAA
Found at i:44229249 original size:20 final size:19
Alignment explanation
Indices: 44229215--44229254 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
44229205 TAAAATTTAC
44229215 TAATTTTTGTAACTTTGTT
1 TAATTTTTGTAACTTTGTT
*
44229234 TAATTGTTTTTAACTTTGTT
1 TAATT-TTTGTAACTTTGTT
44229254 T
1 T
44229255 CACTTCCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TAATTTTTGTAACTTTGTT
Found at i:44230343 original size:18 final size:18
Alignment explanation
Indices: 44230320--44230354 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44230310 TATCTGGAAA
44230320 TGAAATTGCATGGGATTT
1 TGAAATTGCATGGGATTT
*
44230338 TGAAATTTCATGGGATT
1 TGAAATTGCATGGGATT
44230355 CGAGTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (18 bp):
TGAAATTGCATGGGATTT
Found at i:44231422 original size:6 final size:6
Alignment explanation
Indices: 44231411--44231439 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
44231401 GTCTCTTCTT
44231411 TTTTTC TTTTTC TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
44231440 CATAAACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:44231428 original size:12 final size:11
Alignment explanation
Indices: 44231404--44231439 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
44231394 CATATTTGTC
*
44231404 TCTTCTTTTTT
1 TCTTTTTTTTT
44231415 TCTTTTTCTTTT
1 TCTTTTT-TTTT
44231427 TCTTTTTTTTT
1 TCTTTTTTTTT
44231438 TC
1 TC
44231440 CATAAACTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:44236617 original size:9 final size:9
Alignment explanation
Indices: 44236603--44236630 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44236593 TTTTGTTACA
44236603 ACAATTAAT
1 ACAATTAAT
44236612 ACAATTAAT
1 ACAATTAAT
44236621 ACAATTAAT
1 ACAATTAAT
44236630 A
1 A
44236631 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:44236652 original size:68 final size:68
Alignment explanation
Indices: 44236573--44236816 Score: 479
Period size: 68 Copynumber: 3.6 Consensus size: 68
44236563 TCAAGTTTGT
*
44236573 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
44236638 AAA
66 AAA
44236641 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
44236706 AAA
66 AAA
44236709 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
44236774 AAA
66 AAA
44236777 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
44236817 ATTTGATAAT
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 175 1.00
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:44236683 original size:9 final size:9
Alignment explanation
Indices: 44236671--44236698 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44236661 TTTTATTACA
44236671 ACAATTAAT
1 ACAATTAAT
44236680 ACAATTAAT
1 ACAATTAAT
44236689 ACAATTAAT
1 ACAATTAAT
44236698 A
1 A
44236699 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:44236751 original size:9 final size:9
Alignment explanation
Indices: 44236739--44236766 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44236729 TTTTATTACA
44236739 ACAATTAAT
1 ACAATTAAT
44236748 ACAATTAAT
1 ACAATTAAT
44236757 ACAATTAAT
1 ACAATTAAT
44236766 A
1 A
44236767 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:44236844 original size:16 final size:16
Alignment explanation
Indices: 44236823--44236864 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
44236813 AATAATTTGA
*
44236823 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
44236839 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
44236855 TAGTTTTAAT
1 TAATTTTAAT
44236865 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:44236863 original size:22 final size:22
Alignment explanation
Indices: 44236838--44236892 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
44236828 TTACTAACAA
* * *
44236838 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
44236860 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
44236882 TTAATTTTAAT
1 TTAATTTTAAT
44236893 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:44236886 original size:6 final size:6
Alignment explanation
Indices: 44236877--44236905 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44236867 TATTAAAAAA
44236877 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
44236906 AAAAACGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:44242776 original size:47 final size:47
Alignment explanation
Indices: 44242707--44242801 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
44242697 TTACATCATC
44242707 AAGAGTTTCTCCATTCCTTTTCATTTCATTTACCACCGGTTTCACTT
1 AAGAGTTTCTCCATTCCTTTTCATTTCATTTACCACCGGTTTCACTT
44242754 AAGAGTTTCTCCATTCCTTTTCATTTCATTTACCACCGGTTTCACTT
1 AAGAGTTTCTCCATTCCTTTTCATTTCATTTACCACCGGTTTCACTT
44242801 A
1 A
44242802 GGTGATATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.20, C:0.27, G:0.08, T:0.44
Consensus pattern (47 bp):
AAGAGTTTCTCCATTCCTTTTCATTTCATTTACCACCGGTTTCACTT
Found at i:44243636 original size:18 final size:17
Alignment explanation
Indices: 44243608--44243649 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
44243598 GTATTATTTC
44243608 TTAAAAATATTTTTAAG
1 TTAAAAATATTTTTAAG
*
44243625 TTAAAAAGTATTTTTGAG
1 TTAAAAA-TATTTTTAAG
44243643 -TAAAAAT
1 TTAAAAAT
44243650 TAAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 13 0.57
18 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (17 bp):
TTAAAAATATTTTTAAG
Found at i:44253002 original size:11 final size:11
Alignment explanation
Indices: 44252986--44253014 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
44252976 TTGGGTGGAA
44252986 AAAGAAATTTG
1 AAAGAAATTTG
44252997 AAAGAAATTTG
1 AAAGAAATTTG
44253008 AAAGAAA
1 AAAGAAA
44253015 AAGTAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (11 bp):
AAAGAAATTTG
Found at i:44253938 original size:12 final size:12
Alignment explanation
Indices: 44253913--44253951 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
44253903 AAGAAAAAGA
44253913 AAAAAAGAAAAT
1 AAAAAAGAAAAT
44253925 AAATAAAG-AAAT
1 AAA-AAAGAAAAT
44253937 AAAAAAGAAAAT
1 AAAAAAGAAAAT
44253949 AAA
1 AAA
44253952 CATTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 17 0.68
13 4 0.16
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:44265249 original size:31 final size:31
Alignment explanation
Indices: 44265214--44265414 Score: 251
Period size: 31 Copynumber: 6.5 Consensus size: 31
44265204 GTATATGTTT
44265214 TATACATTGCCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
44265245 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
44265276 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
44265307 TATAAATTGCTGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
44265338 TATATATTGCCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
44265368 TATACATTGCCAAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
44265399 TGTATATTGCCTAATT
1 TATACATTGCCGAATT
44265415 AATTTGAGCA
Statistics
Matches: 146, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
30 26 0.18
31 120 0.82
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:44265430 original size:92 final size:93
Alignment explanation
Indices: 44265214--44265420 Score: 231
Period size: 92 Copynumber: 2.2 Consensus size: 93
44265204 GTATATGTTT
* * * * * *
44265214 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGAATTGTTTATAGATAT
1 TATAAATTGCTGAATTTAATTTGCATATGGATATACATTGCCGAATTTGAATTGTATATAGATAT
* * * *
44265279 ACATTGTCGAATTTGATTTGTATATGGT
66 ACATTGCCAAATTTGATTCGTATATGGA
* * * * *
44265307 TATAAATTGCTGAATTTGATTTGTATATGGATATATATTGCCGAA-TTGATTTGTATGTAGATAT
1 TATAAATTGCTGAATTTAATTTGCATATGGATATACATTGCCGAATTTGAATTGTATATAGATAT
44265371 ACATTGCCAAATTTGATTCGTATATGGA
66 ACATTGCCAAATTTGATTCGTATATGGA
* *
44265399 TGTATATTGCCT-AA-TTAATTTG
1 TATAAATTG-CTGAATTTAATTTG
44265421 AGCATTGGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
91 7 0.07
92 49 0.49
93 43 0.43
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.44
Consensus pattern (93 bp):
TATAAATTGCTGAATTTAATTTGCATATGGATATACATTGCCGAATTTGAATTGTATATAGATAT
ACATTGCCAAATTTGATTCGTATATGGA
Found at i:44265586 original size:43 final size:43
Alignment explanation
Indices: 44265538--44265644 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
44265528 TCCGATGTGT
* **
44265538 GATTTCGTGTAAGACCATGTCTGGGCTATTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGCTATTGGCATCAATACGA
44265581 GATTTCGTGTAAGACCATAG-CTGGGCTATTGGCATCAATACGA
1 GATTTCGTGTAAGACCAT-GTCTGGGCTATTGGCATCAATACGA
*
44265624 GATTTCCATGTAAGACCATGT
1 GATTT-CGTGTAAGACCATGT
44265645 ATAGGACATG
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
43 44 0.77
44 13 0.23
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGCTATTGGCATCAATACGA
Found at i:44266365 original size:31 final size:32
Alignment explanation
Indices: 44266327--44266392 Score: 125
Period size: 31 Copynumber: 2.1 Consensus size: 32
44266317 TTTTGTGAGA
44266327 TAATGTCAGAATGATTTTGGAAT-CCCTGTTC
1 TAATGTCAGAATGATTTTGGAATCCCCTGTTC
44266358 TAATGTCAGAATGATTTTGGAATCCCCTGTTC
1 TAATGTCAGAATGATTTTGGAATCCCCTGTTC
44266390 TAA
1 TAA
44266393 CTTTGGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 23 0.68
32 11 0.32
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (32 bp):
TAATGTCAGAATGATTTTGGAATCCCCTGTTC
Found at i:44267138 original size:2 final size:2
Alignment explanation
Indices: 44267131--44267160 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44267121 GGTTGTAAGC
44267131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44267161 TAATTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44268136 original size:45 final size:45
Alignment explanation
Indices: 44268071--44268182 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
44268061 GGCTATATGT
*
44268071 TGAAAGATGCTATGGTATCAT-AT-TAAATATGAGTAAAACCATAGC
1 TGAAAGATGCTATGGCATCATGATAT-AA-ATGAGTAAAACCATAGC
* * * *
44268116 TGAAAGATGTTATGGCATCATGATATAAATGAGTAAGACCATGGT
1 TGAAAGATGCTATGGCATCATGATATAAATGAGTAAAACCATAGC
* *
44268161 TGAGAGACGCTATGGCATCATG
1 TGAAAGATGCTATGGCATCATG
44268183 GAAAACAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
45 52 0.91
46 4 0.07
47 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (45 bp):
TGAAAGATGCTATGGCATCATGATATAAATGAGTAAAACCATAGC
Found at i:44268370 original size:27 final size:27
Alignment explanation
Indices: 44268340--44268404 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
44268330 CCTGCTAGGG
* *
44268340 CACTAAACACGTGATAATCT-TCTGGGA
1 CACTAAACACGAGATAATCTATC-GGAA
* *
44268367 CACTAAACACAAGATAGTCTATCGGAA
1 CACTAAACACGAGATAATCTATCGGAA
44268394 CACTAAACACG
1 CACTAAACACG
44268405 GGGTGTAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (27 bp):
CACTAAACACGAGATAATCTATCGGAA
Found at i:44269406 original size:37 final size:37
Alignment explanation
Indices: 44269356--44269428 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
44269346 GTTCCGTTGA
44269356 TACCTACTATTTGGTGTGATAACTCTAGTGCTGTCGC
1 TACCTACTATTTGGTGTGATAACTCTAGTGCTGTCGC
44269393 TACCTACTATTTGGTGTGATAACTCTAGTGCTGTCG
1 TACCTACTATTTGGTGTGATAACTCTAGTGCTGTCG
44269429 TTGTGGCTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (37 bp):
TACCTACTATTTGGTGTGATAACTCTAGTGCTGTCGC
Found at i:44269701 original size:24 final size:24
Alignment explanation
Indices: 44269668--44269714 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44269658 CTTCTTCGTG
* *
44269668 TCCTCGAGTTAGGGAAGATCGGTA
1 TCCTCAAGTTAAGGAAGATCGGTA
44269692 TCCTCAAGTTAAGGAAGATCGGT
1 TCCTCAAGTTAAGGAAGATCGGT
44269715 GAATGTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (24 bp):
TCCTCAAGTTAAGGAAGATCGGTA
Found at i:44271046 original size:26 final size:23
Alignment explanation
Indices: 44270965--44271046 Score: 94
Period size: 23 Copynumber: 3.4 Consensus size: 23
44270955 CAACTTGTAT
* * *
44270965 GAGCTTACCGTGTCAGCTCTACA
1 GAGCTTACCGTTTCAGCTCGATA
44270988 GAGCTTACCGTTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGATA
44271011 GAGCTTACCGTTTATCAGCTCGGAATA
1 GAGCTTACCG-TT-TCAGCTC-G-ATA
44271038 -AGCTTACCG
1 GAGCTTACCG
44271047 ATCATGGCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 30 0.58
24 2 0.04
25 7 0.13
26 10 0.19
27 3 0.06
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:44272393 original size:22 final size:22
Alignment explanation
Indices: 44272363--44272405 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44272353 ACACCAAAAC
* *
44272363 AGGCTTTTAGCGGCTCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
44272385 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
44272406 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:44272619 original size:43 final size:43
Alignment explanation
Indices: 44272537--44272619 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
44272527 GACCTTTAGT
* * * *
44272537 GGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTTTTGC
1 GGCGTTTGTGGTCGAAGCGCCGCGAAAGACCAGGATCTTTTGC
* *
44272580 GGCGTTTGTGG-GGAAAGCGCCGCGAAAGACCATGATCTTT
1 GGCGTTTGTGGTCG-AAGCGCCGCGAAAGACCAGGATCTTT
44272620 AGGGGCGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGGTCGAAGCGCCGCGAAAGACCAGGATCTTTTGC
Found at i:44272644 original size:43 final size:43
Alignment explanation
Indices: 44272597--44272686 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
44272587 GTGGGGAAAG
* * *
44272597 CGCCGCGAAAG-ACCATGATCTTTAGGGGCGCTTTTTCCACAAA
1 CGCCGCGAAAGAACC-TGATCTTTAGCGGCGCTTTTACCAAAAA
* *
44272640 CGCCGCTAAAGAACCTTATCTTTAGCGGCGCTTTTACCAAAAA
1 CGCCGCGAAAGAACCTGATCTTTAGCGGCGCTTTTACCAAAAA
44272683 CGCC
1 CGCC
44272687 ACTAAAGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 38 0.93
44 3 0.07
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
CGCCGCGAAAGAACCTGATCTTTAGCGGCGCTTTTACCAAAAA
Done.